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Functions3,919 in github.com/bbuchfink/diamond

⨍ Functions 3,919◇ Types & classes 804

↓ 1 callersMethodsize

src/dp/dp.h:224

↓ 1 callersMethodsize

src/util/text_buffer.h:140

↓ 1 callersMethodsize

src/util/data_structures/sparse_flat_array.h:60

↓ 1 callersMethodsize

src/util/data_structures/flat_array.h:80

↓ 1 callersMethodsm2

src/dp/swipe/banded_3frame_swipe.cpp:184

↓ 1 callersMethodsm3

src/dp/swipe/banded_3frame_swipe.cpp:176

↓ 1 callersMethodsm4

src/dp/swipe/banded_3frame_swipe.cpp:180

↓ 1 callersFunctionsmaller

src/stats/matrix_adjust/matrix_adjust_wrapper.cpp:478

↓ 1 callersFunctionsmith_waterman

src/chaining/smith_waterman.cpp:56

↓ 1 callersMethodsoft_mask

src/data/block/block.cpp:163

↓ 1 callersFunctionsolvep

src/lib/tantan/LambdaCalculator.cc:113

↓ 1 callersFunctionsort_targets

src/align/culling.cpp:92

↓ 1 callersMethodsource_len

src/data/block/block.cpp:54

↓ 1 callersMethodspawn_method

src/util/parallel/simple_thread_pool.h:124

↓ 1 callersFunctionsplit

src/util/parallel/multiprocessing.cpp:35

↓ 1 callersFunctionsplit

src/cluster/helpers.cpp:131

↓ 1 callersFunctionsplit_whitespace

src/data/blastdb/pal.cpp:50

↓ 1 callersMethodstore_aligned

src/dp/score_vector_int8.h:353

↓ 1 callersFunctionstore_expanded

src/dp/score_vector_int8.h:383

↓ 1 callersFunctionsummatrix

src/lib/tantan/LambdaCalculator.cc:44

↓ 1 callersFunctionswap_matrix

src/lib/tantan/LambdaCalculator.cc:69

↓ 1 callersFunctionswap_vector

src/lib/tantan/LambdaCalculator.cc:76

↓ 1 callersFunctionswipe

src/dp/swipe/full_swipe.h:135

↓ 1 callersFunctionswipe_set

src/dp/swipe/swipe_wrapper.cpp:472

↓ 1 callersFunctionswipe_threads

src/dp/swipe/anchored_wrapper.cpp:120

↓ 1 callersFunctionsys_wait

src/util/parallel/semaphore.h:123

↓ 1 callersFunctionsys_wake

src/util/parallel/semaphore.h:114

↓ 1 callersFunctiontable_join

src/util/algo/hash_join.h:115

↓ 1 callersFunctiontarget_extension

src/contrib/dna/extension.cpp:261

↓ 1 callersMethodtarget_extension_distance

src/contrib/dna/alignment.h:66

↓ 1 callersMethodtarget_range

src/align/target.h:59

↓ 1 callersFunctiontarget_score

src/align/global_ranking/table.cpp:85

↓ 1 callersMethodtaxids

src/data/blastdb/blastdb.cpp:402

↓ 1 callersFunctiontaxon_lineage

src/output/taxon_format.cpp:29

↓ 1 callersMethodtaxon_scientific_name

src/data/sequence_file.cpp:85

↓ 1 callersFunctiontest_many_producers_one_consumer

src/test/queue.cpp:43

↓ 1 callersFunctiontest_one_producer_many_consumers

src/test/queue.cpp:108

↓ 1 callersFunctionto_lower_case

src/util/util.cpp:106

↓ 1 callersFunctionto_upper_case

src/util/util.cpp:98

↓ 1 callersMethodtotal_blocks

src/data/sequence_file.cpp:547

↓ 1 callersMethodtotal_disk_size

src/search/hit_buffer.h:230

↓ 1 callersMethodtraceback

src/dp/swipe/banded_3frame_swipe.cpp:279

↓ 1 callersFunctiontranslate_query

src/legacy/daa/daa_record.h:28

↓ 1 callersFunctiontranspose

src/lib/tantan/LambdaCalculator.cc:134

↓ 1 callersFunctiontranspose_offset

src/util/simd/transpose16x16.h:221

↓ 1 callersFunctionunaligned_store

src/util/simd/vector8_sse.h:112

↓ 1 callersFunctionungapped_cutoff

src/search/stage2.h:43

↓ 1 callersMethodungapped_lambda

src/stats/score_matrix.h:213

↓ 1 callersMethodungapped_query_range

src/align/legacy/banded_swipe_pipeline.cpp:49

↓ 1 callersMethodungapped_stage

src/align/legacy/banded_swipe_pipeline.cpp:39

↓ 1 callersFunctionungapped_window

src/dp/ungapped_align.cpp:244

↓ 1 callersFunctionuniversal_tag_name

src/data/blastdb/asn1.cpp:166

↓ 1 callersMethodunlock

src/util/parallel/mutex.h:32

↓ 1 callersFunctionupdate_clustering

src/cluster/cluster.h:107

↓ 1 callersFunctionupdate_open

src/dp/swipe/stat_cell.h:240

↓ 1 callersFunctionupdate_row

src/tools/benchmark_swipe.cpp:44

↓ 1 callersFunctionupdate_stats

src/dp/swipe/stat_cell.h:222

↓ 1 callersFunctionupdate_table

src/align/global_ranking/table.cpp:147

↓ 1 callersFunctionuse_query_index

src/run/double_indexed.cpp:77

↓ 1 callersFunctionutf8_to_wide

src/util/system/system.cpp:529

↓ 1 callersMethodvalid

src/dp/scalar/smith_waterman.cpp:138

↓ 1 callersMethodvariables

src/contrib/mcl/recursive_parser.h:203

↓ 1 callersFunctionverify_hit

src/search/left_most.h:30

↓ 1 callersFunctionvhsumq_u32

src/util/simd.h:112

↓ 1 callersFunctionvhsumq_u64

src/util/simd.h:104

↓ 1 callersFunctionview_daa

src/legacy/daa/view.cpp:135

↓ 1 callersMethodvolume

src/data/blastdb/pal.cpp:175

↓ 1 callersMethodwalk_diagonal

src/dp/swipe/banded_3frame_swipe.cpp:188

↓ 1 callersMethodwalk_forward_shift

src/dp/swipe/banded_3frame_swipe.cpp:195

↓ 1 callersMethodwalk_gap

src/dp/swipe/banded_3frame_swipe.cpp:219

↓ 1 callersMethodwalk_reverse_shift

src/dp/swipe/banded_3frame_swipe.cpp:207

↓ 1 callersFunctionwiden_utf8

src/util/system/system.cpp:386

↓ 1 callersFunctionwindow_scores

src/util/sequence/sequence.cpp:211

↓ 1 callersFunctionwindow_ungapped

src/dp/ungapped_simd.cpp:32

↓ 1 callersFunctionwindow_ungapped_best

src/dp/ungapped_simd.cpp:69

↓ 1 callersFunctionwrite_aligned

src/data/queries.cpp:50

↓ 1 callersFunctionwrite_blocks

src/cluster/len_sort.cpp:77

↓ 1 callersFunctionwrite_file

src/legacy/daa/merge.cpp:48

↓ 1 callersMethodwrite_masked_seq

src/data/block/block.cpp:130

↓ 1 callersFunctionwrite_reps

src/cluster/data.cpp:61

↓ 1 callersFunctionwrite_unaligned

src/data/queries.cpp:32

↓ 1 callersMethod~alp

src/lib/alp/sls_alp.cpp:179

↓ 1 callersMethod~alp_sim

src/lib/alp/sls_alp_sim.cpp:2005

↓ 1 callersMethod~importance_sampling

src/lib/alp/sls_alp_data.cpp:1401

MethodALP_set_of_parameters

src/lib/alp/sls_pvalues.hpp:54

MethodAccMapping

src/cluster/multinode/output.cpp:59

MethodAccessionParsing

src/util/sequence/sequence.h:46

MethodActiveTarget

src/align/alt_hsp.cpp:32

src/util/command_line_parser.h:207

MethodAlignMode

src/basic/basic.cpp:38

MethodAlignedPtr

src/lib/ips4o/memory.hpp:72

MethodAlignedPtr

src/lib/ips4o/memory.hpp:114

src/chaining/greedy_align.cpp:410

MethodAlignmentAllocator

src/util/memory/alignment.h:61

src/contrib/dna/chain.h:80

src/util/hsp/approx_hsp.h:27

MethodAnchorData

src/contrib/dna/chain.h:52

MethodApproxHsp

src/util/hsp/approx_hsp.h:60

src/util/data_structures/array.h:29

MethodAsyncKeyMerger

src/util/util.h:234

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